| Port details |
- p5-BioPerl-Run Wrapper modules for common bioinformatics tools
- 1.007003 biology
 =2      1.007003Version of this port present on the latest quarterly branch. - Maintainer: sunpoet@FreeBSD.org
- Port Added: 2016-12-18 15:29:01
- Last Update: 2022-09-07 21:58:51
- Commit Hash: fb16dfe
- People watching this port, also watch:: jdictionary, py311-Automat, py311-python-gdsii, py39-PyOpenGL, p5-Sane
- Also Listed In: perl5
- License: ART10 GPLv1+
- WWW:
- https://github.com/bioperl/bioperl-run
- Description:
- Bioperl-run contain modules that provides a PERL interface to various
bioinformatics applications. This allows various applications to be used
with common Bioperl objects.
  ¦  ¦  ¦  ¦ 
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- p5-BioPerl-Run>0:biology/p5-BioPerl-Run
- To install the port:
- cd /usr/ports/biology/p5-BioPerl-Run/ && make install clean
- To add the package, run one of these commands:
- pkg install biology/p5-BioPerl-Run
- pkg install p5-BioPerl-Run
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.- PKGNAME: p5-BioPerl-Run
- Flavors: there is no flavor information for this port.
- distinfo:
- TIMESTAMP = 1549711722
SHA256 (BioPerl-Run-1.007003.tar.gz) = e62e529352f0644bc26509065595d0a47fb6217e5f1301acad76182c2f062071
SIZE (BioPerl-Run-1.007003.tar.gz) = 5138162
Packages (timestamps in pop-ups are UTC):
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- p5-Algorithm-Diff>=0 : devel/p5-Algorithm-Diff
- p5-Bio-Cluster>=0 : biology/p5-Bio-Cluster
- p5-Bio-FeatureIO>=0 : biology/p5-Bio-FeatureIO
- p5-BioPerl>=1.007000 : biology/p5-BioPerl
- p5-Config-Any>=0 : devel/p5-Config-Any
- p5-File-Sort>=0 : misc/p5-File-Sort
- p5-IO-String>=0 : devel/p5-IO-String
- p5-IPC-Run>=0 : devel/p5-IPC-Run
- p5-XML-Twig>=0 : textproc/p5-XML-Twig
- perl5>=5.32.r0<5.33 : lang/perl5.32
- p5-Module-Build>=0.4206 : devel/p5-Module-Build
- perl5>=5.32.r0<5.33 : lang/perl5.32
- Runtime dependencies:
-
- p5-Algorithm-Diff>=0 : devel/p5-Algorithm-Diff
- p5-Bio-Cluster>=0 : biology/p5-Bio-Cluster
- p5-Bio-FeatureIO>=0 : biology/p5-Bio-FeatureIO
- p5-BioPerl>=1.007000 : biology/p5-BioPerl
- p5-Config-Any>=0 : devel/p5-Config-Any
- p5-File-Sort>=0 : misc/p5-File-Sort
- p5-IO-String>=0 : devel/p5-IO-String
- p5-IPC-Run>=0 : devel/p5-IPC-Run
- p5-XML-Twig>=0 : textproc/p5-XML-Twig
- perl5>=5.32.r0<5.33 : lang/perl5.32
- There are no ports dependent upon this port
Configuration Options:- ===> The following configuration options are available for p5-BioPerl-Run-1.007003:
DOCS=on: Build and/or install documentation
===> Use 'make config' to modify these settings
- Options name:
- biology_p5-BioPerl-Run
- USES:
- perl5 shebangfix
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
|
| Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
| Commit | Credits | Log message |
|---|
07 Sep 2022 21:58:51
 |
Stefan Eßer (se) |
Remove WWW entries moved into port Makefiles
Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.
This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.
Approved by: portmgr (tcberner) |
1.007003
07 Sep 2022 21:10:59
|
Stefan Eßer (se) |
Add WWW entries to port Makefiles
It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.
Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.
There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.
(Only the first 15 lines of the commit message are shown above  ) |
1.007003
20 Jul 2022 14:20:57
|
Tobias C. Berner (tcberner) |
biology: remove 'Created by' lines
A big Thank You to the original contributors of these ports:
* Aaron Dalton <aaron@FreeBSD.org>
* Akinori MUSHA aka knu <knu@idaemons.org>
* Andrey Zakhvatov
* Bob Zimmermann <rpz@cse.wustl.edu>
* Camson Huynh <chuynh@biolateral.com.au>
* Dan Siercks <dsiercks@uwm.edu>
* Fernan Aguero <fernan@iib.unsam.edu.ar>
* Hannes Hauswedell <h2+fbsdports@fsfe.org>
* J. Bacon <jwb@FreeBSD.org>
* Jason Bacon <jwb@FreeBSD.org>
* Jeremy <karlj000@unbc.ca> (Only the first 15 lines of the commit message are shown above ) |
1.007003
06 Apr 2021 14:31:07
|
Mathieu Arnold (mat) |
Remove # $FreeBSD$ from Makefiles. |
1.007003
08 Jan 2020 18:36:40
 |
sunpoet |
Remove outdated CONFLICTS: p5-bioperl-run was renamed to p5-BioPerl-Run over 3
years ago |
1.007003
20 Feb 2019 20:46:59
|
sunpoet |
Update to 1.007003
- Take maintainership
Changes: https://metacpan.org/changes/distribution/BioPerl-Run |
1.007002
06 Oct 2018 13:06:45
|
des |
Fix every instance of RUN_DEPENDS:=${BUILD_DEPENDS} in p5 ports, except
for where it resulted in a change in output from build-depends-list or
run-depends-list.
Approved by: portmgr (adamw) |
1.007002
15 Sep 2017 19:17:44
|
sunpoet |
Update to 1.007002
Changes: http://search.cpan.org/dist/BioPerl-Run/Changes |
1.007001_1
15 Sep 2017 08:58:50
|
mat |
Fix license information for portgs that use "the same license as Perl".
Sponsored by: Absolight |
1.007001_1
31 Jan 2017 16:21:46
|
mat |
Bump PORTREVISION for ports affected by the fix the last commit.
Done with: Tools/scripts/bump-revision.sh
Sponsored by: Absolight |
1.007001
20 Dec 2016 18:35:26
|
sunpoet |
- Update to 1.007001
Changes: http://search.cpan.org/dist/BioPerl-Run/Changes |
1.007000
19 Dec 2016 15:54:34
|
sunpoet |
- Update to 1.007000
- Change MASTER_SITES back to CPAN
- Update LICENSE
- Add LICENSE_FILE
- Use PORTDOCS
- Convert to options target helper
- Use INSTALL_SCRIPT
- Pet portlint: fix diff header of patch file
Changes: http://search.cpan.org/dist/BioPerl-Run/Changes |
1.6.901_2
18 Dec 2016 15:25:44
|
sunpoet |
- Move biology/p5-bioperl-run to biology/p5-BioPerl-Run
- Sort *_DEPENDS
- Add NO_ARCH
- Bump PORTREVISION for biology/p5-bioperl renaming |
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